Abstract:Discipline is the basic organization unit of university. Its move and development in the matrix structure that become of many factors come from the internal and external of university. The development of the subject grew out of the scientific research. Discipline construction is an intensive path of subject development, its essence is optimizing the allocation of subject academic resources, make the combination of scientific research and teaching principles have different emphases in different disciplines to promote the growth of knowledge and the cultivation of talents. Discipline construction is the necessary way to enhance the level of scientific research of university. It is also the advantage of university to carry out technical innovation activities. Therefore, in order to achieve the discipline development goals, university need to seek innovation on the discipline development mechanism, establish a scientific, reasonable and effective organization operation specification and the scientific incentive system, the Discipline evaluation system and so on. These are the key to achieve across the industry, interdisciplinary and cross team to carry out collaborative innovation for the discipline organization. For the university, they are also important issues need to be solved in the process of obtaining cluster innovation effect and in the development of the discipline.